Query psy10742
Match_columns 207
No_of_seqs 203 out of 470
Neff 6.0
Searched_HMMs 46136
Date Fri Aug 16 17:23:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10742.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10742hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR00917 2A060601 Niemann-Pic 99.5 3.7E-14 8E-19 145.6 6.2 77 114-190 302-378 (1204)
2 TIGR00918 2A060602 The Eukaryo 99.4 9.8E-14 2.1E-18 141.4 6.0 75 114-188 36-110 (1145)
3 KOG1934|consensus 99.3 2.2E-12 4.8E-17 128.6 6.4 87 114-205 2-88 (868)
4 KOG1933|consensus 99.0 2.4E-10 5.1E-15 116.5 5.6 75 116-190 282-356 (1201)
5 PF02460 Patched: Patched fami 98.8 1E-08 2.2E-13 101.7 6.2 80 1-83 57-137 (798)
6 KOG1934|consensus 98.8 9.7E-09 2.1E-13 102.8 5.8 81 1-84 96-177 (868)
7 TIGR00921 2A067 The (Largely A 96.8 0.0019 4.1E-08 63.2 5.4 68 120-188 367-434 (719)
8 KOG1935|consensus 96.6 0.0016 3.4E-08 65.3 3.3 67 116-182 54-120 (1143)
9 TIGR00833 actII Transport prot 95.9 0.011 2.4E-07 60.1 5.4 68 120-188 345-412 (910)
10 COG1033 Predicted exporters of 95.9 0.012 2.6E-07 58.7 5.2 71 117-188 364-434 (727)
11 TIGR00921 2A067 The (Largely A 95.1 0.024 5.1E-07 55.5 4.2 52 134-186 2-53 (719)
12 TIGR00917 2A060601 Niemann-Pic 94.6 0.036 7.8E-07 58.2 4.2 48 1-54 398-447 (1204)
13 COG1033 Predicted exporters of 94.3 0.067 1.4E-06 53.5 5.2 61 125-186 2-62 (727)
14 TIGR03480 HpnN hopanoid biosyn 93.4 0.089 1.9E-06 53.2 4.2 63 125-188 2-65 (862)
15 TIGR00920 2A060605 3-hydroxy-3 90.8 0.14 3E-06 52.0 2.0 31 121-151 2-32 (886)
16 COG2409 Predicted drug exporte 90.2 0.27 5.8E-06 50.5 3.6 68 121-189 357-424 (937)
17 TIGR03480 HpnN hopanoid biosyn 83.0 1.7 3.6E-05 44.1 4.6 62 123-185 435-496 (862)
18 TIGR00833 actII Transport prot 77.1 2.9 6.3E-05 42.8 4.2 57 134-190 1-58 (910)
19 PF10825 DUF2752: Protein of u 68.7 3.8 8.2E-05 27.4 1.8 41 101-148 9-49 (52)
20 PF13323 HPIH: N-terminal doma 68.0 2.3 5E-05 34.7 0.8 37 119-155 2-38 (153)
21 PF05814 DUF843: Baculovirus p 56.2 8.5 0.00018 28.4 1.9 45 141-186 30-74 (83)
22 COG2409 Predicted drug exporte 53.0 12 0.00026 38.7 3.1 66 125-190 3-69 (937)
23 PF02460 Patched: Patched fami 48.7 35 0.00076 34.3 5.5 68 122-190 422-491 (798)
24 TIGR00918 2A060602 The Eukaryo 46.7 20 0.00044 38.1 3.5 54 1-56 129-198 (1145)
25 PF05957 DUF883: Bacterial pro 38.7 52 0.0011 24.0 3.8 35 117-151 54-88 (94)
26 PF11174 DUF2970: Protein of u 37.8 22 0.00049 24.2 1.6 24 133-156 27-50 (56)
27 TIGR02741 TraQ type-F conjugat 35.4 53 0.0011 23.9 3.2 33 120-152 20-52 (80)
28 PRK13727 conjugal transfer pil 34.8 54 0.0012 23.9 3.2 33 120-152 20-52 (80)
29 COG2332 CcmE Cytochrome c-type 32.5 25 0.00054 28.8 1.3 35 136-170 7-41 (153)
30 PRK10614 multidrug efflux syst 29.1 1E+02 0.0022 32.3 5.3 63 120-182 510-580 (1025)
31 PRK10404 hypothetical protein; 26.1 54 0.0012 24.9 2.1 29 122-150 66-94 (101)
32 TIGR00914 2A0601 heavy metal e 25.9 1.3E+02 0.0029 31.4 5.6 59 118-176 519-585 (1051)
33 PF02117 7TM_GPCR_Sra: Serpent 25.6 94 0.002 28.0 3.9 51 116-169 123-173 (328)
34 KOG0145|consensus 24.4 38 0.00083 30.5 1.1 55 100-158 115-177 (360)
35 PF02468 PsbN: Photosystem II 22.7 28 0.0006 22.7 -0.1 20 165-184 22-41 (43)
36 PRK10132 hypothetical protein; 22.2 70 0.0015 24.6 2.1 30 122-151 72-101 (108)
37 PF09679 TraQ: Type-F conjugat 21.9 1.2E+02 0.0027 22.6 3.2 32 120-151 20-51 (93)
38 PF13807 GNVR: G-rich domain o 21.6 44 0.00096 23.7 0.8 23 136-158 58-80 (82)
39 PF00873 ACR_tran: AcrB/AcrD/A 20.2 2.2E+02 0.0049 29.5 5.9 68 115-182 506-581 (1021)
40 PF05196 PTN_MK_N: PTN/MK hepa 20.1 30 0.00066 23.8 -0.3 14 35-48 12-26 (57)
No 1
>TIGR00917 2A060601 Niemann-Pick C type protein family. The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis.
Probab=99.47 E-value=3.7e-14 Score=145.65 Aligned_cols=77 Identities=25% Similarity=0.453 Sum_probs=74.2
Q ss_pred hhhHHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCCCC
Q psy10742 114 LKCVDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMNYS 190 (207)
Q Consensus 114 ~~~ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~~s 190 (207)
..++++.++++|+++|.+|+||||++|+++++++++|+.|+.+++.++||++||+|++|++++|+++|+++|+++..
T Consensus 302 ~~~~~~~l~~~F~~~G~~var~P~~vi~isllv~~~l~~Gl~~~~vetDpv~Lw~~~~s~ar~E~~~fd~~fgpf~r 378 (1204)
T TIGR00917 302 LATVEGHLARFFTKYGIWVARNPGLVLCLSVSVVLLLGVGLIFFEVETDPVKLWVAPGSRAALEKEFFDTHFGPFYR 378 (1204)
T ss_pred hhHHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHHHhCcccCChhhhcCCCCcHHHHHHHHHHHhcCCccc
Confidence 67789999999999999999999999999999999999999999999999999999999999999999999999744
No 2
>TIGR00918 2A060602 The Eukaryotic (Putative) Sterol Transporter (EST) Family.
Probab=99.44 E-value=9.8e-14 Score=141.40 Aligned_cols=75 Identities=24% Similarity=0.336 Sum_probs=72.5
Q ss_pred hhhHHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCC
Q psy10742 114 LKCVDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMN 188 (207)
Q Consensus 114 ~~~ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~ 188 (207)
.-+++..++++|+++|.+|+||||.+|++++++.++||+|+.++++|+||++||+.++|++++|+++|+++|||+
T Consensus 36 ~l~~~~~~q~~~~~~G~~~~~~p~~vl~~~~~~~~~~~~Gl~~~~ietdp~~LWv~~~sr~~~E~~y~~~~~gp~ 110 (1145)
T TIGR00918 36 PLWLRAKFQRLLFTLGCYIQKHCGKVLFVGLLVFSAFAVGLRAANIETNVEQLWVEVGGRVSQELAYTRQKIGEE 110 (1145)
T ss_pred cHHHHHHHHHHHHHHHHHHHHCchhhhhHHHHHHHHHHhhHhheEEEecHHHhccCCCChHHHHHHHHHhccCCc
Confidence 345888999999999999999999999999999999999999999999999999999999999999999999998
No 3
>KOG1934|consensus
Probab=99.31 E-value=2.2e-12 Score=128.57 Aligned_cols=87 Identities=36% Similarity=0.685 Sum_probs=82.0
Q ss_pred hhhHHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCCCCccc
Q psy10742 114 LKCVDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMNYSARF 193 (207)
Q Consensus 114 ~~~ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~~s~~f 193 (207)
..++++.+..+|+++|.+++||||.++++|+++|++||.|++.+..++|+.++|+|.||+||.|+++++|+|+. |
T Consensus 2 ~~~~~r~~~~~f~~~g~~v~~~p~~~ii~~l~lt~~~s~g~~~~~~~~d~~~~ytP~~a~sr~E~~v~~e~~~~-----~ 76 (868)
T KOG1934|consen 2 SSRLERILKVLFRKYGLFVARYPWFFIIIPLLLTAVLSVGILPLLTEDDARYLYTPSNARSRDERAVFKEFWPL-----F 76 (868)
T ss_pred cchHHHHHHHHHHHhCceeeecchHHHHHHHHHHHHHhcCchhheecCCcceeeCCCCCchHHHHHHHHhhccc-----c
Confidence 46789999999999999999999999999999999999998899999999999999999999999999999988 8
Q ss_pred CCCcccCCCCCC
Q psy10742 194 NPTRITRPGRYI 205 (207)
Q Consensus 194 ~~~r~~~~~~~~ 205 (207)
.|||.+...||+
T Consensus 77 ~~g~~~~~~~~~ 88 (868)
T KOG1934|consen 77 YPGRTIAIFRFI 88 (868)
T ss_pred CCCceeEeEEEE
Confidence 999988877764
No 4
>KOG1933|consensus
Probab=99.03 E-value=2.4e-10 Score=116.47 Aligned_cols=75 Identities=23% Similarity=0.407 Sum_probs=72.4
Q ss_pred hHHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCCCC
Q psy10742 116 CVDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMNYS 190 (207)
Q Consensus 116 ~ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~~s 190 (207)
.+|..++.+|.++|-++++||..++.+.+.+.+.||.|++++.+++||++||+.++|++|.|+++|+.+|||+..
T Consensus 282 ~~~~~l~~~F~~~g~~~~~~P~~~~~~~~~~~i~~s~gli~~~v~T~pv~lW~~~~s~ar~ek~~fd~~fGpf~r 356 (1201)
T KOG1933|consen 282 STETFLEVFFRRWGTFCARNPLIVLYIILFVVIALSSGLIYFMVTTDPVDLWSLARSQARTEKSFFDTHFGPFYR 356 (1201)
T ss_pred hHHHHHHHHhhhcccceecCchhhhHHHHHHHHHhccchhheeeeccchhhccCCcchhHHHHHHHhhhcCchhh
Confidence 578999999999999999999999999999999999999999999999999999999999999999999999855
No 5
>PF02460 Patched: Patched family; InterPro: IPR003392 The transmembrane protein, patched, is a receptor for the morphogene Sonic Hedgehog. In Drosophila melanogaster, this protein associates with the smoothened protein to transduce hedgehog signals, leading to the activation of wingless, decapentaplegic and patched itself. It participates in cell interactions that establish pattern within the segment and imaginal disks during development. The mouse homologue may play a role in epidermal development. The human Niemann-Pick C1 protein, defects in which cause Niemann-Pick type II disease, is also a member of this family. This protein is involved in the intracellular trafficking of cholesterol, and may play a role in vesicular trafficking in glia, a process that may be crucial for maintaining the structural functional integrity of nerve terminals.; GO: 0008158 hedgehog receptor activity, 0016020 membrane
Probab=98.76 E-value=1e-08 Score=101.67 Aligned_cols=80 Identities=28% Similarity=0.487 Sum_probs=65.1
Q ss_pred CCCHHHHHHHHHHHHHHHhcceeeccCCceecchhhhccc-CCCcCCchhhhhhHHHHHhhcCCeeeeccccccCCCcee
Q psy10742 1 MLTKEIWKELRLIDEIVHNTSIVFGEDDQVYRYDDICAKW-VDSCFPNDILNLDYVIEEVETKALNLTFPIRFTFSPRRA 79 (207)
Q Consensus 1 LL~~~~~~Ei~~Ld~~I~n~~v~~~~~g~~~tY~dlCar~-~~~C~~n~~l~l~~~~~~~~~~~~nlTfP~~~~~~~~~~ 79 (207)
||++++++|+.+|+++|+++..++. +|+.++|+|+|+++ ++.|..|.+++... ........+++|||.+ +..+.++
T Consensus 57 lL~~~~l~ei~~l~~~I~~~~~v~~-~~~~~~~~dlC~~~~~~~~~~~~~~~~~~-~~~~~~~~~~ltyP~~-~~~~~~~ 133 (798)
T PF02460_consen 57 LLRPEYLDEILQLDDFIMNNITVED-DGETITYKDLCAKYCDLNCPVNSFLNFEL-ESNRSNDNINLTYPIM-NIFGQPI 133 (798)
T ss_pred CcCHHHHHHHHHHHHHHHHhceecc-CCeeeeccccCCCccCCCcchhHHHHHHH-HhhccCCceeecCCcc-CCCCccc
Confidence 6999999999999999999766665 67789999999999 88998888876522 1222336799999999 7889999
Q ss_pred eecc
Q psy10742 80 TIDP 83 (207)
Q Consensus 80 y~~~ 83 (207)
|+-+
T Consensus 134 ~l~~ 137 (798)
T PF02460_consen 134 FLGP 137 (798)
T ss_pred ccCc
Confidence 8765
No 6
>KOG1934|consensus
Probab=98.75 E-value=9.7e-09 Score=102.84 Aligned_cols=81 Identities=27% Similarity=0.405 Sum_probs=65.6
Q ss_pred CCCHHHHHHHHHHHHHHHhcceeeccCCceecchhhhccc-CCCcCCchhhhhhHHHHHhhcCCeeeeccccccCCCcee
Q psy10742 1 MLTKEIWKELRLIDEIVHNTSIVFGEDDQVYRYDDICAKW-VDSCFPNDILNLDYVIEEVETKALNLTFPIRFTFSPRRA 79 (207)
Q Consensus 1 LL~~~~~~Ei~~Ld~~I~n~~v~~~~~g~~~tY~dlCar~-~~~C~~n~~l~l~~~~~~~~~~~~nlTfP~~~~~~~~~~ 79 (207)
||++++++|+.+++++|+++.+++. +|..++|+|+|.+| +..|..|+++.++.... +...+++||||++ ...++++
T Consensus 96 iL~~~~l~e~~~i~~~i~~n~~~~~-~~~~~~~~d~C~~~~~~~~~~~~~~~~~~~~~-~~~~~~~lTYP~~-~~~~~~~ 172 (868)
T KOG1934|consen 96 ILRPEYLDEVLQIDDYISNNLTVDV-DGRRITYKDFCMRNCDVNCFYNLLLILLKRLT-ISRPQFNLTYPIT-EVFGDKI 172 (868)
T ss_pred ccCHHHHHHHHHHHHHHHhheeeec-CCceeehhhhhhcCCCcchhhHHHHHHhhccc-CCCCceEEecCcc-ccCCCce
Confidence 6999999999999999999999988 77779999999997 56677777776664221 1213599999999 6778999
Q ss_pred eeccC
Q psy10742 80 TIDPR 84 (207)
Q Consensus 80 y~~~~ 84 (207)
|+-|-
T Consensus 173 ~l~~~ 177 (868)
T KOG1934|consen 173 YLGPN 177 (868)
T ss_pred ecccc
Confidence 98654
No 7
>TIGR00921 2A067 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. They fall into seven phylogenetic families, this family (2.A.6.7) consists of uncharacterised putative transporters, largely in the Archaea.
Probab=96.79 E-value=0.0019 Score=63.19 Aligned_cols=68 Identities=22% Similarity=0.288 Sum_probs=60.7
Q ss_pred HHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCC
Q psy10742 120 TLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMN 188 (207)
Q Consensus 120 ~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~ 188 (207)
.++++++++|.++.+||+..+++.+++++++..|+..++.+.|+.+ |.|+|+++++..+.++++|+..
T Consensus 367 ~~~~~l~~~~~~~~r~~~~vl~v~lll~~~~~~~~~~l~~~~d~~~-~~p~~s~~~~~~~~l~~~f~~~ 434 (719)
T TIGR00921 367 EIEEELSKVLSITVRHPVPALVAALIITGLGLYGAAGIKPEVNIEK-FIPQDLPSLQARKVIESHMGGS 434 (719)
T ss_pred HHHHHHHHHHHHHHhCCcHhHHHHHHHHHHHHHhccCCCcccChhh-cCCCCcHHHHHHHHHHHHhCCC
Confidence 4677889999999999999999999999999999999988888865 5699999999999999999854
No 8
>KOG1935|consensus
Probab=96.60 E-value=0.0016 Score=65.30 Aligned_cols=67 Identities=24% Similarity=0.377 Sum_probs=62.1
Q ss_pred hHHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHH
Q psy10742 116 CVDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVE 182 (207)
Q Consensus 116 ~ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~ 182 (207)
++...++++-.++|-.|.||-|.+|++.+++-+.|+.|+-..++|+|.++||+..+++--.|.++..
T Consensus 54 ~lRa~fQ~lLf~lGc~vqr~agkvlfv~~lif~~~~~GLr~a~IeT~~~qLWV~~GgRl~~El~yt~ 120 (1143)
T KOG1935|consen 54 YLRAFFQLLLFRLGCFVQRHAGKVLFVGLLIFGAFCVGLRHATIETDLVQLWVEEGGRLSEELNYTP 120 (1143)
T ss_pred HHHHHHHHHHHHhhhHHHhhhhhhHHHHHHHHHHHHhhhhheeeeccHHHHHHHhccchhHhhcccc
Confidence 4666778888899999999999999999999999999999999999999999999999999998883
No 9
>TIGR00833 actII Transport protein. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.
Probab=95.92 E-value=0.011 Score=60.07 Aligned_cols=68 Identities=15% Similarity=0.261 Sum_probs=60.1
Q ss_pred HHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCC
Q psy10742 120 TLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMN 188 (207)
Q Consensus 120 ~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~ 188 (207)
..++++.+++.++.|||+.++++.+++.+++..|+..++.+.|+.+ +-|+++++++..+.++++|++.
T Consensus 345 ~~~~~~~~l~~~v~r~p~~vl~v~~~ll~~~~~~~~~l~~~~~~~~-~~p~~~~~~~~~~~l~~~f~~~ 412 (910)
T TIGR00833 345 KIRFIWRRLGTAVVRRPWPILVTTLIISGVSLLALPLIRTGYDDEK-MIPTDLESVQGYEAADRHFPGN 412 (910)
T ss_pred hHhHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCcCCCcHh-hcCCCCcHHHHHHHHHHhCCCc
Confidence 3456789999999999999999999998888899989888877755 6789999999999999999887
No 10
>COG1033 Predicted exporters of the RND superfamily [General function prediction only]
Probab=95.87 E-value=0.012 Score=58.68 Aligned_cols=71 Identities=24% Similarity=0.398 Sum_probs=66.4
Q ss_pred HHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCC
Q psy10742 117 VDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMN 188 (207)
Q Consensus 117 ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~ 188 (207)
-...+.+.+.+.+...++||+..+++.++++++.-.|......++|..+ |-|+|+|+.+..+..+++||..
T Consensus 364 ~~~~~~~~l~~i~~~~~~~~~~~L~vali~~~~~~yg~~~v~~~~d~~k-~~p~d~p~~~~~~~i~~~~ggs 434 (727)
T COG1033 364 KKGKLEKRLSKIAKIIARHPVTVLVVALIIVGVSLYGASKVKIETDIEK-YLPQDLPALKALDFIEKEFGGS 434 (727)
T ss_pred cchhHHHHHHHHHHHhHhhhHHHHHHHHHHHHHHHhhhhhcccccchHh-hcCCCcHHHHHHHHHHHHcCCC
Confidence 4456788999999999999999999999999999999999999999988 8999999999999999999987
No 11
>TIGR00921 2A067 The (Largely Archaeal Putative) Hydrophobe/Amphiphile Efflux-3 (HAE3) Family. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. They fall into seven phylogenetic families, this family (2.A.6.7) consists of uncharacterised putative transporters, largely in the Archaea.
Probab=95.08 E-value=0.024 Score=55.53 Aligned_cols=52 Identities=21% Similarity=0.180 Sum_probs=49.2
Q ss_pred ccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcC
Q psy10742 134 RHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFK 186 (207)
Q Consensus 134 r~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~ 186 (207)
+|||.++++.+++++++..|+.+++.++|+ .-|-|+|+++++..+.++++||
T Consensus 2 ~~~~~v~~~~~~l~~~~~~g~~~l~~~~~~-~~~~~~d~~~~~~~~~~~~~fg 53 (719)
T TIGR00921 2 RFRTAIILVFLALLILSAYGAQHLNVESDT-EKQLPKDFESYKWYHVLQREFG 53 (719)
T ss_pred CCchhhHHHHHHHHHHHHHhcccceeccCh-hhhCCCCCHHHHHHHHHHHHHC
Confidence 799999999999999999999999999998 5678999999999999999998
No 12
>TIGR00917 2A060601 Niemann-Pick C type protein family. The model describes Niemann-Pick C type protein in eukaryotes. The defective protein has been associated with Niemann-Pick disease which is described in humans as autosomal recessive lipidosis. It is characterized by the lysosomal accumulation of unestrified cholesterol. It is an integral membrane protein, which indicates that this protein is most likely involved in cholesterol transport or acts as some component of cholesterol homeostasis.
Probab=94.57 E-value=0.036 Score=58.22 Aligned_cols=48 Identities=21% Similarity=0.187 Sum_probs=40.8
Q ss_pred CCCHHHHHHHHHHHHHHHhcceeeccCCceecchhhhcccC--CCcCCchhhhhhH
Q psy10742 1 MLTKEIWKELRLIDEIVHNTSIVFGEDDQVYRYDDICAKWV--DSCFPNDILNLDY 54 (207)
Q Consensus 1 LL~~~~~~Ei~~Ld~~I~n~~v~~~~~g~~~tY~dlCar~~--~~C~~n~~l~l~~ 54 (207)
+|+++.++|+.+|++.|+++.+ +| ++|+|+|.|.. +.|..+.+++++.
T Consensus 398 Vl~~e~L~~v~~L~~~I~~l~~----~~--~tl~diC~kp~~~~~C~v~S~~~yfq 447 (1204)
T TIGR00917 398 VLDDDNLKLLFDIQKKISQLFA----NL--ITLDDICFAPLSPYNCFIYSTCGYFQ 447 (1204)
T ss_pred cCCHHHHHHHHHHHHHHHhhhc----cC--CChhccccccCCCCCCccCCHHHHhc
Confidence 5899999999999999998842 33 78999999964 6799999998874
No 13
>COG1033 Predicted exporters of the RND superfamily [General function prediction only]
Probab=94.33 E-value=0.067 Score=53.51 Aligned_cols=61 Identities=28% Similarity=0.367 Sum_probs=57.6
Q ss_pred HHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcC
Q psy10742 125 FFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFK 186 (207)
Q Consensus 125 F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~ 186 (207)
|.++|.++.+||+..+++.+++++++..|..+++.++| -+.+.|++++..+..+.+++.|+
T Consensus 2 ~~kl~~fi~~~r~~i~~~~~~l~i~~~~~a~~l~~~s~-~~~~~~~d~~~~k~y~~~~~~f~ 62 (727)
T COG1033 2 FEKLARFIIRRRKSIILIFLLLTILSAFGAQNLEFDSG-TETFLPKDNEEYKNYDRLYKEFG 62 (727)
T ss_pred hHHHHHHHHhCccHHHHHHHHHHHHHHHhhheeeecCC-ccccCCCchHHHHHHHHHHHhhC
Confidence 78999999999999999999999999999999999999 67778999999999999999998
No 14
>TIGR03480 HpnN hopanoid biosynthesis associated RND transporter like protein HpnN. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins appear to be related to the RND family of export proteins, particularly the hydrophobe/amphiphile efflux-3 (HAE3) family represented by TIGR00921.
Probab=93.36 E-value=0.089 Score=53.17 Aligned_cols=63 Identities=21% Similarity=0.347 Sum_probs=53.5
Q ss_pred HHhhchhhhccchhhhHHHHHHHHHhhc-cccceeeecCccccccCCCCChHHHHHHHHHhcCCC
Q psy10742 125 FFKLGVFIARHPGYFIIVPILLTIICIT-GFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMN 188 (207)
Q Consensus 125 F~~~G~~var~P~~fii~~llvt~~ls~-Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~ 188 (207)
|.++-.++.+|||.++++.++++++++. +..+++.++|..+|. |++.+.++....+++.|+..
T Consensus 2 ~~~~~~~~~~~~~~vl~~~~~lt~~~~~~~~~~l~i~td~~~Ll-p~~~~~~~~~~~~~~~f~~~ 65 (862)
T TIGR03480 2 LVRLVGFCARHAWWVLAIALLLTALSVIYTVTNLSVNTDTSDLL-SPDLPFRQDERAYEKAFPQD 65 (862)
T ss_pred hHHHHHHHHhchHHHHHHHHHHHHHHHHHHHHhceecCCHHHhc-CCCCchhHHHHHHHHhcCCc
Confidence 5677788999999999999999999885 788999999999985 57788888777888888764
No 15
>TIGR00920 2A060605 3-hydroxy-3-methylglutaryl-coenzyme A reductase.
Probab=90.80 E-value=0.14 Score=52.03 Aligned_cols=31 Identities=42% Similarity=0.587 Sum_probs=27.5
Q ss_pred HHHHHHhhchhhhccchhhhHHHHHHHHHhh
Q psy10742 121 LKRLFFKLGVFIARHPGYFIIVPILLTIICI 151 (207)
Q Consensus 121 l~~~F~~~G~~var~P~~fii~~llvt~~ls 151 (207)
+.++|+.+|+|||.|||=+|+..+-+|+++.
T Consensus 2 ~~rlf~~hg~fcashpweviv~~~tlt~c~l 32 (886)
T TIGR00920 2 LSRLFRAHGQFCASHPWEVIVATLTLTICML 32 (886)
T ss_pred chhHhhhhcchhcCCCceehhhHHHHHHHHe
Confidence 5789999999999999999999998886643
No 16
>COG2409 Predicted drug exporters of the RND superfamily [General function prediction only]
Probab=90.24 E-value=0.27 Score=50.53 Aligned_cols=68 Identities=12% Similarity=0.263 Sum_probs=57.9
Q ss_pred HHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCCC
Q psy10742 121 LKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMNY 189 (207)
Q Consensus 121 l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~~ 189 (207)
-+++.+++|.++.++|+.++++.+++.+.+.+=+...+.- .+...+.|++.+++.=.+.+++|||...
T Consensus 357 ~~~~w~~~~~~v~~~P~~~l~~s~~ill~~~l~~~~~~~~-~~~~~~l~~~~~~~~g~~~~~~~Fg~g~ 424 (937)
T COG2409 357 ESRFWRRVGTLVVRRPLAILVASLAILLVLALPLPLVRLG-YDDRKTLPSSNPSRKGYAAADRHFGQGR 424 (937)
T ss_pred hcchhhhheeEEeeccHHHHHHHHHHHHHHHHHhcccccC-CcchhhccCccchhhHHHHHhhhccccc
Confidence 5778899999999999999999999988887765555444 4567788999999999999999999863
No 17
>TIGR03480 HpnN hopanoid biosynthesis associated RND transporter like protein HpnN. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins appear to be related to the RND family of export proteins, particularly the hydrophobe/amphiphile efflux-3 (HAE3) family represented by TIGR00921.
Probab=82.95 E-value=1.7 Score=44.12 Aligned_cols=62 Identities=16% Similarity=0.175 Sum_probs=49.0
Q ss_pred HHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhc
Q psy10742 123 RLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYF 185 (207)
Q Consensus 123 ~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F 185 (207)
+++.+++.++.+||+..+++.++++++...|+..++.+.||.+++ |+++++......+.+.+
T Consensus 435 ~~~~~~~~~~~~~~~~v~~~~l~l~~~~~~~~~~~~~~~~~~~~~-~~~~~s~~~~~~l~~~~ 496 (862)
T TIGR03480 435 ATLAPLDAFLRRHRRPVLGVTLILGIAALALLPQLRFDFNPLNLQ-DPKTESVRTFLELLADP 496 (862)
T ss_pred hhHHHHHHHHHhccHHHHHHHHHHHHHHHHHhccCCCCCCchhcc-CCCchHHHHHHHHHhCc
Confidence 467788889999999999999999888888888888889997665 56666666655555554
No 18
>TIGR00833 actII Transport protein. Characterized members of the RND superfamily all probably catalyze substrate efflux via an H+ antiport mechanism. These proteins are found ubiquitously in bacteria, archaea and eukaryotes. This sub-family includes the S. coelicolor ActII3 protein, which may play a role in drug resistance, and the M. tuberculosis MmpL7 protein, which catalyzes export of an outer membrane lipid, phthiocerol dimycocerosate.
Probab=77.13 E-value=2.9 Score=42.81 Aligned_cols=57 Identities=12% Similarity=-0.178 Sum_probs=43.6
Q ss_pred ccchhhhHHHHHHHHHhhccccceee-ecCccccccCCCCChHHHHHHHHHhcCCCCC
Q psy10742 134 RHPGYFIIVPILLTIICITGFQRIFF-EMDPEYLFSPQHGPGKTERAIVEQYFKMNYS 190 (207)
Q Consensus 134 r~P~~fii~~llvt~~ls~Gl~~~~~-e~D~~~LwsP~~S~ar~E~~~~~~~F~~~~s 190 (207)
||||..|++-+++++++......+.. ..+...-+.|+++++++-.+.+++.|+..++
T Consensus 1 r~~~~vi~~W~~~~~~~~~~~p~l~~~~~~~~~~~~p~~~~s~~a~~~l~~~F~~~~~ 58 (910)
T TIGR00833 1 RSAYGIIGVWIATAISLQLLAPLLEDVSYFRLQAELPGGAASSIAVKEMSAAFQEAIR 58 (910)
T ss_pred CcchhHHHHHHHHHHHHHhcCCCHHHHhhhcCcCCCCCCcHHHHHHHHHHHhcCCCCC
Confidence 68999999888888777655544322 2345567889999999999999999987544
No 19
>PF10825 DUF2752: Protein of unknown function (DUF2752); InterPro: IPR021215 This family is conserved in bacteria. Many members are annotated as being putative membrane proteins.
Probab=68.75 E-value=3.8 Score=27.36 Aligned_cols=41 Identities=20% Similarity=0.484 Sum_probs=28.5
Q ss_pred CCCCccccccccchhhHHHHHHHHHHhhchhhhccchhhhHHHHHHHH
Q psy10742 101 SFPCPQISMAGCGLKCVDNTLKRLFFKLGVFIARHPGYFIIVPILLTI 148 (207)
Q Consensus 101 ~~~~~~~~~~~~~~~~ie~~l~~~F~~~G~~var~P~~fii~~llvt~ 148 (207)
.++||++|+.|+-...++..+...| .-||..++++++++..
T Consensus 9 G~~CPgCG~tRa~~~ll~gd~~~A~-------~~np~~~~~~~~~~~~ 49 (52)
T PF10825_consen 9 GIPCPGCGMTRAFIALLHGDFAAAF-------RYNPLGLLLLPFFLLL 49 (52)
T ss_pred CCCCCCCcHHHHHHHHHCCCHHHHH-------HHCcHHHHHHHHHHHH
Confidence 5789999998886666665555554 5688777776666543
No 20
>PF13323 HPIH: N-terminal domain with HPIH motif
Probab=67.97 E-value=2.3 Score=34.67 Aligned_cols=37 Identities=27% Similarity=0.325 Sum_probs=32.0
Q ss_pred HHHHHHHHhhchhhhccchhhhHHHHHHHHHhhcccc
Q psy10742 119 NTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQ 155 (207)
Q Consensus 119 ~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~ 155 (207)
+.+.+.+..++++.++||..+|++.++++..-=+|++
T Consensus 2 k~vt~~l~~lsr~aa~hPIHtIvv~aLLAS~aYlsvl 38 (153)
T PF13323_consen 2 KQVTKPLQALSRFAARHPIHTIVVTALLASTAYLSVL 38 (153)
T ss_pred ccccHHHHHHHHHHccCCCeehHHHHHHHHHHHHHHH
Confidence 4567788999999999999999999999888777775
No 21
>PF05814 DUF843: Baculovirus protein of unknown function (DUF843); InterPro: IPR008561 This family consists of several unidentified baculovirus proteins of around 85 residues long with no known function.
Probab=56.17 E-value=8.5 Score=28.45 Aligned_cols=45 Identities=13% Similarity=0.283 Sum_probs=34.8
Q ss_pred HHHHHHHHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcC
Q psy10742 141 IVPILLTIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFK 186 (207)
Q Consensus 141 i~~llvt~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~ 186 (207)
++-+.+..+|.+++.+...|++|.+|++ .++.+-++|+..++-|.
T Consensus 30 ~LilfviF~~~L~~yy~kteS~~~dL~t-~k~K~~KKK~~ln~afD 74 (83)
T PF05814_consen 30 LLILFVIFFCVLQVYYIKTESTPQDLQT-EKAKSIKKKRDLNDAFD 74 (83)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcHHHHhh-hhhhhHHHHHHHHHHHH
Confidence 3344555678889989999999999988 47888888887777664
No 22
>COG2409 Predicted drug exporters of the RND superfamily [General function prediction only]
Probab=53.02 E-value=12 Score=38.65 Aligned_cols=66 Identities=21% Similarity=0.237 Sum_probs=47.1
Q ss_pred HHhhchhhhccchhhhHHHHHHHHHhhccccceeee-cCccccccCCCCChHHHHHHHHHhcCCCCC
Q psy10742 125 FFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFE-MDPEYLFSPQHGPGKTERAIVEQYFKMNYS 190 (207)
Q Consensus 125 F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e-~D~~~LwsP~~S~ar~E~~~~~~~F~~~~s 190 (207)
++++|++++||+|..|++-++++++++.=+...... .|--..-.|+++++..-.+...+.|+..++
T Consensus 3 ~~~~~r~i~r~~~~vi~~Wi~~~~~~~~~~p~l~~~~~~~~~~~~p~~~~s~~a~~~~~~~f~~~~~ 69 (937)
T COG2409 3 LFPIGRFIRRFAWAVILAWIALAVVLNLFAPTLEALGQDKSVALLPDDAPSLVAMKLIGQAFNESDS 69 (937)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhhcccccCCCCchHHHHHHHHhhhccCCCC
Confidence 456999999999999999888887765544333221 133344579999998888888888877444
No 23
>PF02460 Patched: Patched family; InterPro: IPR003392 The transmembrane protein, patched, is a receptor for the morphogene Sonic Hedgehog. In Drosophila melanogaster, this protein associates with the smoothened protein to transduce hedgehog signals, leading to the activation of wingless, decapentaplegic and patched itself. It participates in cell interactions that establish pattern within the segment and imaginal disks during development. The mouse homologue may play a role in epidermal development. The human Niemann-Pick C1 protein, defects in which cause Niemann-Pick type II disease, is also a member of this family. This protein is involved in the intracellular trafficking of cholesterol, and may play a role in vesicular trafficking in glia, a process that may be crucial for maintaining the structural functional integrity of nerve terminals.; GO: 0008158 hedgehog receptor activity, 0016020 membrane
Probab=48.70 E-value=35 Score=34.32 Aligned_cols=68 Identities=19% Similarity=0.150 Sum_probs=47.5
Q ss_pred HHHHHhhchhhhccchhhhHHHHHH--HHHhhccccceeeecCccccccCCCCChHHHHHHHHHhcCCCCC
Q psy10742 122 KRLFFKLGVFIARHPGYFIIVPILL--TIICITGFQRIFFEMDPEYLFSPQHGPGKTERAIVEQYFKMNYS 190 (207)
Q Consensus 122 ~~~F~~~G~~var~P~~fii~~llv--t~~ls~Gl~~~~~e~D~~~LwsP~~S~ar~E~~~~~~~F~~~~s 190 (207)
+.+-.+||.++.+.+..++++.+.+ .++...|...+++.-|+.++ .|.||....-.+..+++|...+.
T Consensus 422 ~~~~~~y~~~l~~~~~k~~vll~~~~yl~~siyG~~~i~~gld~~~l-~p~dSyl~~~~~~~e~yf~~~g~ 491 (798)
T PF02460_consen 422 RFFRDYYAPFLTSPWVKIFVLLLFLIYLGVSIYGCTQIKEGLDPEKL-FPDDSYLQKFFRLQEKYFFSYGP 491 (798)
T ss_pred HHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHhhcccCCCCChhhc-cCCCChhHHHHHHHHHHhhccCc
Confidence 3444678999988776655444333 33444588888888899755 78899998888888777766543
No 24
>TIGR00918 2A060602 The Eukaryotic (Putative) Sterol Transporter (EST) Family.
Probab=46.65 E-value=20 Score=38.06 Aligned_cols=54 Identities=13% Similarity=0.079 Sum_probs=43.5
Q ss_pred CCCHHHHHHHHHHHHHHHhcceeeccCCceecchhhhcccC----------------CCcCCchhhhhhHHH
Q psy10742 1 MLTKEIWKELRLIDEIVHNTSIVFGEDDQVYRYDDICAKWV----------------DSCFPNDILNLDYVI 56 (207)
Q Consensus 1 LL~~~~~~Ei~~Ld~~I~n~~v~~~~~g~~~tY~dlCar~~----------------~~C~~n~~l~l~~~~ 56 (207)
+|+++.+.+..++.+.|+++.|.. .|++++++|+|-|=. ..|.-=.+|+-+|.-
T Consensus 129 vl~~~~L~~~~~~~~~i~~~~v~~--~~~~~~l~diC~~p~~p~~~~~~~~~~~~~l~~C~iitpldcfweg 198 (1145)
T TIGR00918 129 VLTPEALLQHLDSALKASRVHVYL--YNRQWGLEHLCYKSGEPSTEGGYIEQILEKLIPCLIITPLDCFWEG 198 (1145)
T ss_pred cCCHHHHHHHHHHHHHHHHhhccc--cCCccchhhhccCCCCcccccchhhhcccCCCCcEEecccchhhcc
Confidence 589999999999999999997644 467799999999876 338776667777644
No 25
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=38.70 E-value=52 Score=24.01 Aligned_cols=35 Identities=3% Similarity=-0.042 Sum_probs=26.1
Q ss_pred HHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhh
Q psy10742 117 VDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICI 151 (207)
Q Consensus 117 ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls 151 (207)
+....+..-......|..|||.-+.+.+.+.++++
T Consensus 54 ~~~~~~~~~~~~~~~V~e~P~~svgiAagvG~llG 88 (94)
T PF05957_consen 54 AREQAREAAEQTEDYVRENPWQSVGIAAGVGFLLG 88 (94)
T ss_pred HHHHHHHHHHHHHHHHHHChHHHHHHHHHHHHHHH
Confidence 44556666777788999999999888777665543
No 26
>PF11174 DUF2970: Protein of unknown function (DUF2970); InterPro: IPR021344 This short family is conserved in Proteobacteria. The function is not known.
Probab=37.78 E-value=22 Score=24.20 Aligned_cols=24 Identities=33% Similarity=0.538 Sum_probs=20.6
Q ss_pred hccchhhhHHHHHHHHHhhccccc
Q psy10742 133 ARHPGYFIIVPILLTIICITGFQR 156 (207)
Q Consensus 133 ar~P~~fii~~llvt~~ls~Gl~~ 156 (207)
.-+|+.+|++.++.++++..|++.
T Consensus 27 ~~~p~~~Ii~gii~~~~fV~~Lv~ 50 (56)
T PF11174_consen 27 QGSPVHFIIVGIILAALFVAGLVL 50 (56)
T ss_pred cCCCchHHHHHHHHHHHHHHHHHH
Confidence 457999999999999999888754
No 27
>TIGR02741 TraQ type-F conjugative transfer system pilin chaperone TraQ. This protein makes a specific interaction with the pilin (TraA) protein to aid its transfer through the inner membrane during the process of F-type conjugative pilus assembly.
Probab=35.45 E-value=53 Score=23.88 Aligned_cols=33 Identities=18% Similarity=0.322 Sum_probs=25.8
Q ss_pred HHHHHHHhhchhhhccchhhhHHHHHHHHHhhc
Q psy10742 120 TLKRLFFKLGVFIARHPGYFIIVPILLTIICIT 152 (207)
Q Consensus 120 ~l~~~F~~~G~~var~P~~fii~~llvt~~ls~ 152 (207)
.+--+|+-.|+.|.+.||.-+.+.=++.+++.+
T Consensus 20 ~lG~wfhiVarlVy~~P~mA~~laeliav~lVl 52 (80)
T TIGR02741 20 SLGIWFHIVSRLVYRKPWMAFFLAELIAVILVL 52 (80)
T ss_pred HhhHHHHHHHHHHHcChHHHHHHHHHHHHHHHH
Confidence 467789999999999999888777666555443
No 28
>PRK13727 conjugal transfer pilin chaperone TraQ; Provisional
Probab=34.77 E-value=54 Score=23.87 Aligned_cols=33 Identities=15% Similarity=0.239 Sum_probs=25.7
Q ss_pred HHHHHHHhhchhhhccchhhhHHHHHHHHHhhc
Q psy10742 120 TLKRLFFKLGVFIARHPGYFIIVPILLTIICIT 152 (207)
Q Consensus 120 ~l~~~F~~~G~~var~P~~fii~~llvt~~ls~ 152 (207)
.+-.+|+-.|+.|.+.||.-+.+.=++.+++.+
T Consensus 20 ~lG~wfhiVarlVy~~PemA~~laeiiav~lVl 52 (80)
T PRK13727 20 SLGVWFHIVARLVYSKPWMAFFLAELIAAILVL 52 (80)
T ss_pred hhhHHHHHHHHHHHcChHHHHHHHHHHHHHHHh
Confidence 366789999999999999888777666555443
No 29
>COG2332 CcmE Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]
Probab=32.48 E-value=25 Score=28.84 Aligned_cols=35 Identities=17% Similarity=0.367 Sum_probs=26.4
Q ss_pred chhhhHHHHHHHHHhhccccceeeecCccccccCC
Q psy10742 136 PGYFIIVPILLTIICITGFQRIFFEMDPEYLFSPQ 170 (207)
Q Consensus 136 P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP~ 170 (207)
+.+++++..+..+.+.+|+.......|+.+.|+|.
T Consensus 7 ~Rl~~il~~~a~l~~a~~l~Lyal~~ni~~fy~Ps 41 (153)
T COG2332 7 KRLWIILAGLAGLALAVGLVLYALRSNIDYFYTPS 41 (153)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhhhccCceEEECHH
Confidence 44555666666667777888888899999999995
No 30
>PRK10614 multidrug efflux system subunit MdtC; Provisional
Probab=29.11 E-value=1e+02 Score=32.27 Aligned_cols=63 Identities=11% Similarity=0.083 Sum_probs=37.1
Q ss_pred HHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeec----Cc----cccccCCCCChHHHHHHHH
Q psy10742 120 TLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEM----DP----EYLFSPQHGPGKTERAIVE 182 (207)
Q Consensus 120 ~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~----D~----~~LwsP~~S~ar~E~~~~~ 182 (207)
.+++.|.++=.++-+|||.++++.+++.+++..++..+..+- |- .++..|+++.-.+..+..+
T Consensus 510 ~l~~~Y~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~f~P~~d~~~~~v~v~~~~gtsl~~t~~~~~ 580 (1025)
T PRK10614 510 ALQQGYGRSLKWVLNHTRWVGVVLLGTIALNVWLYISIPKTFFPEQDTGRLMGFIQADQSISFQAMRGKLQ 580 (1025)
T ss_pred HHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHHHHHhCCCCcCCCCCceEEEEEEECCCCCCHHHHHHHHH
Confidence 356667777778889999999888777665544332222211 11 2356688776543333333
No 31
>PRK10404 hypothetical protein; Provisional
Probab=26.10 E-value=54 Score=24.87 Aligned_cols=29 Identities=14% Similarity=0.196 Sum_probs=20.1
Q ss_pred HHHHHhhchhhhccchhhhHHHHHHHHHh
Q psy10742 122 KRLFFKLGVFIARHPGYFIIVPILLTIIC 150 (207)
Q Consensus 122 ~~~F~~~G~~var~P~~fii~~llvt~~l 150 (207)
+..-..--.+|..|||.-+.+...+.+++
T Consensus 66 k~aa~~td~yV~e~Pw~avGiaagvGlll 94 (101)
T PRK10404 66 KQAVYRADDYVHEKPWQGIGVGAAVGLVL 94 (101)
T ss_pred HHHHHHHHHHHHhCcHHHHHHHHHHHHHH
Confidence 34444456779999999988876655443
No 32
>TIGR00914 2A0601 heavy metal efflux pump (cobalt-zinc-cadmium). This model represents a family of H+/heavy metal cation antiporters. This family is one of several subfamilies within the scope of pfam model pfam00873.
Probab=25.94 E-value=1.3e+02 Score=31.40 Aligned_cols=59 Identities=10% Similarity=-0.065 Sum_probs=37.5
Q ss_pred HHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhcccccee-----eecCc---cccccCCCCChHH
Q psy10742 118 DNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIF-----FEMDP---EYLFSPQHGPGKT 176 (207)
Q Consensus 118 e~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~-----~e~D~---~~LwsP~~S~ar~ 176 (207)
.+.+.+.|.++=.++-+|||.++++.+++.+++..++..+. ..+.. .....|+++...+
T Consensus 519 ~~~~~~~Y~~~l~~~l~~~~~~i~~~~~ll~~~~~~~~~l~~~f~P~~d~~~~~v~~~~~~Gts~e~ 585 (1051)
T TIGR00914 519 MRVLKRRYEPLLERVLAWPAVVLGAAAVSIVLVVWIASRVGGEFIPSLNEGDLAYQALRIPGTSLAQ 585 (1051)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHhcCcCcCCCCCCCeEEEEEEeCCCCCHHH
Confidence 34677788888888889999999888777665544433322 12221 2345688775443
No 33
>PF02117 7TM_GPCR_Sra: Serpentine type 7TM GPCR chemoreceptor Sra; InterPro: IPR000344 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class a (Sra) from the Sra superfamily []. Sra receptors contain 6-7 hydrophobic, putative transmembrane, regions and can be distinguished from other 7TM GPCR receptors by their own characteristic TM signatures.; GO: 0004888 transmembrane signaling receptor activity, 0007606 sensory perception of chemical stimulus, 0016021 integral to membrane
Probab=25.63 E-value=94 Score=28.03 Aligned_cols=51 Identities=22% Similarity=0.159 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceeeecCccccccC
Q psy10742 116 CVDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFFEMDPEYLFSP 169 (207)
Q Consensus 116 ~ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~e~D~~~LwsP 169 (207)
.+|+.++.++.++.......+..++ .+++++++.|...+---+||.+.|+|
T Consensus 123 ~idRl~at~~~~~~~~~~~~~g~~l---~i~~li~s~~~~~~i~~~~p~~gyv~ 173 (328)
T PF02117_consen 123 TIDRLLATFFPKYYSKKSYIIGIIL---SILVLILSFITGFIIYWDDPLDGYVP 173 (328)
T ss_pred HHHHHHHHhchhhhhhhhHHHHHHH---HHHHHHHHHHHeeEEEeCCCCccccc
Confidence 3777777777666543333343332 24555667776666677999998886
No 34
>KOG0145|consensus
Probab=24.36 E-value=38 Score=30.53 Aligned_cols=55 Identities=22% Similarity=0.356 Sum_probs=39.8
Q ss_pred CCCCCcccc--------ccccchhhHHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhcccccee
Q psy10742 100 LSFPCPQIS--------MAGCGLKCVDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIF 158 (207)
Q Consensus 100 ~~~~~~~~~--------~~~~~~~~ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~ 158 (207)
.||.+||.- +.+++..+-.+-|+.+|..+|+.+..+ |++--+..+-=++|+++|.
T Consensus 115 VSyARPSs~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSR----iL~dqvtg~srGVgFiRFD 177 (360)
T KOG0145|consen 115 VSYARPSSDSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSR----ILVDQVTGLSRGVGFIRFD 177 (360)
T ss_pred EEeccCChhhhcccceEEecCCccchHHHHHHHHHHhhhhhhhh----hhhhcccceecceeEEEec
Confidence 578888765 568899999999999999999988554 2333333334456777773
No 35
>PF02468 PsbN: Photosystem II reaction centre N protein (psbN); InterPro: IPR003398 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbN found in PSII. PsbN may have a role in PSII stability, however its actual function unknown. PsbN does not appear to be essential for photoautotrophic growth or normal PSII function.; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane
Probab=22.70 E-value=28 Score=22.68 Aligned_cols=20 Identities=20% Similarity=0.255 Sum_probs=12.4
Q ss_pred ccccCCCCChHHHHHHHHHh
Q psy10742 165 YLFSPQHGPGKTERAIVEQY 184 (207)
Q Consensus 165 ~LwsP~~S~ar~E~~~~~~~ 184 (207)
-+|+.-+.+|+.-++-|++|
T Consensus 22 ~iYtaFGppSk~LrDPfeeH 41 (43)
T PF02468_consen 22 AIYTAFGPPSKELRDPFEEH 41 (43)
T ss_pred hhhheeCCCccccCCccccc
Confidence 34566666666666666655
No 36
>PRK10132 hypothetical protein; Provisional
Probab=22.22 E-value=70 Score=24.58 Aligned_cols=30 Identities=10% Similarity=0.002 Sum_probs=20.8
Q ss_pred HHHHHhhchhhhccchhhhHHHHHHHHHhh
Q psy10742 122 KRLFFKLGVFIARHPGYFIIVPILLTIICI 151 (207)
Q Consensus 122 ~~~F~~~G~~var~P~~fii~~llvt~~ls 151 (207)
+......=..|..|||.-+.+...+.++++
T Consensus 72 ~~a~~~~~~~V~~~Pw~svgiaagvG~llG 101 (108)
T PRK10132 72 RDAVGCADTFVRERPWCSVGTAAAVGIFIG 101 (108)
T ss_pred HHHHHHHHHHHHhCcHHHHHHHHHHHHHHH
Confidence 444445556899999999998776655443
No 37
>PF09679 TraQ: Type-F conjugative transfer system pilin chaperone (TraQ); InterPro: IPR014112 This entry represents TraQ, a protein that makes a specific interaction with pilin (TraA) to aid its transfer through the inner membrane during the process of F-type conjugative pilus assembly [, ].
Probab=21.94 E-value=1.2e+02 Score=22.63 Aligned_cols=32 Identities=13% Similarity=0.277 Sum_probs=24.8
Q ss_pred HHHHHHHhhchhhhccchhhhHHHHHHHHHhh
Q psy10742 120 TLKRLFFKLGVFIARHPGYFIIVPILLTIICI 151 (207)
Q Consensus 120 ~l~~~F~~~G~~var~P~~fii~~llvt~~ls 151 (207)
.+--+|+-.++.|.+.||.-+.+.=++.+.+.
T Consensus 20 ~lG~wfHIvarLV~~~P~mA~~LAeiia~~Lv 51 (93)
T PF09679_consen 20 SLGFWFHIVARLVYRQPEMAFFLAEIIAVGLV 51 (93)
T ss_pred HHHHHHHHHHHHHHhChHHHHHHHHHHHHHHh
Confidence 46678999999999999988877666554443
No 38
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=21.59 E-value=44 Score=23.71 Aligned_cols=23 Identities=13% Similarity=0.226 Sum_probs=16.1
Q ss_pred chhhhHHHHHHHHHhhcccccee
Q psy10742 136 PGYFIIVPILLTIICITGFQRIF 158 (207)
Q Consensus 136 P~~fii~~llvt~~ls~Gl~~~~ 158 (207)
+...+++++++.+++|+|+.+++
T Consensus 58 ~~lil~l~~~~Gl~lgi~~~~~r 80 (82)
T PF13807_consen 58 RALILALGLFLGLILGIGLAFLR 80 (82)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566777788888888876654
No 39
>PF00873 ACR_tran: AcrB/AcrD/AcrF family; InterPro: IPR001036 The Escherichia coli acrA and acrB genes encode a multi-drug efflux system that is believed to protect the bacterium against hydrophobic inhibitors []. The E. coli AcrB protein is a transporter that is energized by proton-motive force and that shows the widest substrate specificity among all known multidrug pumps, ranging from most of the currently used antibiotics, disinfectants, dyes, and detergents to simple solvents. The structure of ligand-free AcrB shows that it is a homotrimer of 110kDa per subunit. Each subunit contains 12 transmembrane helices and two large periplasmic domains (each exceeding 300 residues) between helices 1 and 2, and helices 7 and 8. X-ray analysis of the overexpressed AcrB protein demonstrated that the three periplasmic domains form, in the centre, a funnel-like structure and a connected narrow (or closed) pore. The pore is opened to the periplasm through three vestibules located at subunit interfaces. These vestibules were proposed to allow direct access of drugs from the periplasm as well as the outer leaflet of the cytoplasmic membrane. The three transmembrane domains of AcrB protomers form a large, 30A-wide central cavity that spans the cytoplasmic membrane and extends to the cytoplasm X-ray crystallographic structures of the trimeric AcrB pump from E. coli with four structurally diverse ligands demonstrated that three molecules of ligand bind simultaneously to the extremely large central cavity of 5000 cubic angstroms, primarily by hydrophobic, aromatic stacking and van der Waals interactions. Each ligand uses a slightly different subset of AcrB residues for binding. The bound ligand molecules often interact with each other, stabilising the binding. ; GO: 0005215 transporter activity, 0006810 transport, 0016020 membrane; PDB: 2V50_B 1T9U_A 2HRT_B 3NOC_A 3NOG_A 4DX7_A 1OYD_A 3AOB_A 1T9V_A 4DX6_B ....
Probab=20.23 E-value=2.2e+02 Score=29.51 Aligned_cols=68 Identities=21% Similarity=0.241 Sum_probs=40.6
Q ss_pred hhHHHHHHHHHHhhchhhhccchhhhHHHHHHHHHhhccccceee------ecCc--cccccCCCCChHHHHHHHH
Q psy10742 115 KCVDNTLKRLFFKLGVFIARHPGYFIIVPILLTIICITGFQRIFF------EMDP--EYLFSPQHGPGKTERAIVE 182 (207)
Q Consensus 115 ~~ie~~l~~~F~~~G~~var~P~~fii~~llvt~~ls~Gl~~~~~------e~D~--~~LwsP~~S~ar~E~~~~~ 182 (207)
+.....+++.|.++-..+-+|||.++++.+++.+++...+..+.. +.+- .++..|+|+.-..-.+..+
T Consensus 506 ~~~~~~l~~~Y~~lL~~~L~~~~~~l~i~l~l~i~s~~l~~~l~~ef~P~~d~~~~~v~v~lp~Gtsle~t~~~~~ 581 (1021)
T PF00873_consen 506 DRFFDRLQRGYRRLLRWALRHPKLVLLIALLLLILSLFLFPFLPKEFFPPSDRGEFYVSVELPPGTSLEETDAIVK 581 (1021)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHHHHHHHCTSEBESS----TSEEEEEEEESTTC-HHHHHHHHH
T ss_pred cccccccccchhhhhhhhhhcccchhhhhhhhhhhhhcccccCCcccCCcccCCceEEEEeeccCchHHHHHHHHH
Confidence 444556777888888888999999988887776654433333322 1121 2356677776544444433
No 40
>PF05196 PTN_MK_N: PTN/MK heparin-binding protein family, N-terminal domain; InterPro: IPR020089 Several extracellular heparin-binding proteins involved in regulation of growth and differentiation belong to a new family of growth factors. These growth factors are highly related proteins of about 140 amino acids that contain 10 conserved cysteines probably involved in disulphide bonds, and include pleiotrophin [] (also known as heparin-binding growth-associated molecule HB-GAM, heparin-binding growth factor 8 HBGF-8, heparin-binding neutrophic factor HBNF and osteoblast specific protein OSF-1); midkine (MK) []; retinoic acid-induced heparin-binding protein (RIHB) []; and pleiotrophic factors alpha-1and -2 and beta-1 and -2 from Xenopus laevis, the homologs of midkine and pleiotrophin respectively. Pleiotrophin is a heparin-binding protein that has neurotrophic activity and has mitogenic activity towards fibroblasts. It is highly expressed in brain and uterus tissues, but is also found in gut, muscle and skin. It is thought to possess an important brain-specific function. Midkine is a regulator of differentiation whose expression is regulated by retinoic acid, and, like pleiotrophin, is a heparin-binding growth/differentiation factor that acts on fibroblasts and nerve cells.; GO: 0008083 growth factor activity; PDB: 1MKN_A.
Probab=20.11 E-value=30 Score=23.77 Aligned_cols=14 Identities=43% Similarity=1.208 Sum_probs=5.7
Q ss_pred hhhcccC-CCcCCch
Q psy10742 35 DICAKWV-DSCFPND 48 (207)
Q Consensus 35 dlCar~~-~~C~~n~ 48 (207)
.-|+.|+ +.|+||+
T Consensus 12 s~C~eW~wg~CVpn~ 26 (57)
T PF05196_consen 12 SECAEWRWGPCVPNN 26 (57)
T ss_dssp ---SSSEEE----SS
T ss_pred cCccccEeecccCCC
Confidence 4689897 7799987
Done!